miRNA: 3'- aaaGUCaGCGGCCUA-C-CUAUUACGgc -5'
miRNA: 3'- aaaGUCAGCGGCCUAC--------CUAUUa----CGGC- -5'
miRNA: 3'- aaaGUCA-GCGGCCUACCU--AUUACGGc -5'
miRNA: 3'- aaaGUCa-GCGGCCU-ACCUAU-------UACGGC- -5'
miRNA: 3'- -AAAGUCAGCGGCCUACCUAUUACGGC- -5'
Results 1 - 5 of 5 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 1091 | 5' | -51.9 | NC_000929.1 | + | 15055 | 0.68 | 0.63311 |
|
Target: 5'- --aCAG-CGCCGGAUcGcGAUGAUGCa- -3' miRNA: 3'- aaaGUCaGCGGCCUA-C-CUAUUACGgc -5' |
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| 1091 | 5' | -51.9 | NC_000929.1 | + | 15480 | 0.68 | 0.621385 |
|
Target: 5'- --gCGGUCGCUGGGUGaagugcauGAUGAgguucGCCGg -3' miRNA: 3'- aaaGUCAGCGGCCUAC--------CUAUUa----CGGC- -5' |
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| 1091 | 5' | -51.9 | NC_000929.1 | + | 25582 | 0.8 | 0.13766 |
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Target: 5'- --cCGGUaCGCCGGGUGGGggUAAUGCCa -3' miRNA: 3'- aaaGUCA-GCGGCCUACCU--AUUACGGc -5' |
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| 1091 | 5' | -51.9 | NC_000929.1 | + | 25745 | 0.68 | 0.655374 |
|
Target: 5'- --cCGGggCGCUGGGcUGGAUGgggaaagGUGCCGg -3' miRNA: 3'- aaaGUCa-GCGGCCU-ACCUAU-------UACGGC- -5' |
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| 1091 | 5' | -51.9 | NC_000929.1 | + | 27142 | 1.06 | 0.001819 |
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Target: 5'- aUUUCAGUCGCCGGAUGGAUAAUGCCGc -3' miRNA: 3'- -AAAGUCAGCGGCCUACCUAUUACGGC- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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